I'm seeing something similar with the v1.06 firmware on a WRT54G v3. I've flashed it over from the standard Linksys firmware and configured it without any issues. However, after powering down I see that it doesn't seem to come up with its configuration intact.

I'm curious if anyone else running a v3 is seeing this issue with v1.06 of tomato. I may try flashing it to v1.05 to see if the problem persists.